bbmix: Bayesian Model for Genotyping using RNA-Seq

The method models RNA-seq reads using a mixture of 3 beta-binomial distributions to generate posterior probabilities for genotyping bi-allelic single nucleotide polymorphisms. Elena Vigorito, Anne Barton, Costantino Pitzalis, Myles J. Lewis and Chris Wallace (2023) <doi:10.1093/bioinformatics/btad393> "BBmix: a Bayesian beta-binomial mixture model for accurate genotyping from RNA-sequencing."

Version: 1.0.0
Depends: R (≥ 3.4.0)
Imports: methods, Rcpp (≥ 0.12.0), rstan (≥ 2.18.1), R.utils, data.table, rmutil
LinkingTo: BH (≥ 1.66.0), Rcpp (≥ 0.12.0), RcppEigen (≥ 0.3.3.3.0), rstan (≥ 2.18.1), StanHeaders (≥ 2.18.0)
Suggests: knitr, rmarkdown
Published: 2023-07-06
Author: Elena Vigorito [aut, cre], Chris Wallace [aut]
Maintainer: Elena Vigorito <elena.vigorito at mrc-bsu.cam.ac.uk>
License: GPL-2
NeedsCompilation: yes
SystemRequirements: GNU make
Materials: README
CRAN checks: bbmix results

Documentation:

Reference manual: bbmix.pdf
Vignettes: BBmix installation and usage

Downloads:

Package source: bbmix_1.0.0.tar.gz
Windows binaries: r-prerel: bbmix_1.0.0.zip, r-release: bbmix_1.0.0.zip, r-oldrel: bbmix_1.0.0.zip
macOS binaries: r-prerel (arm64): bbmix_1.0.0.tgz, r-release (arm64): bbmix_1.0.0.tgz, r-oldrel (arm64): bbmix_1.0.0.tgz, r-prerel (x86_64): bbmix_1.0.0.tgz, r-release (x86_64): bbmix_1.0.0.tgz

Linking:

Please use the canonical form https://CRAN.R-project.org/package=bbmix to link to this page.